NOVELTIES
Bisque (Bio-Image Semantic Query User Environment) is web-based open-source client-server project developed for the exchange and exploration of biological images. The Bisque system supports several areas useful for imaging researchers from image capture to image analsysis and querying. Registration required.
Click here for more informationsPublished on 2012-07-09 08:01:44
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Category: Imaging software, Biomedical images search
OME | The Open Microscopy Environment allows: Image database
OME (Open Microscopy Environment) is a consortium of universities, research labs, industry and developers producing open-source software and format standards for microscopy data. It is an open-source client-server software platform that enables access to and use of a wide range of biological data. You can access your data in OME from any platform. By combining facilities for large-scale data management and a flexible, model-based architecture, OMERO provides a foundation for many different data-management challenges, especially where large, heterogeneous datasets must be accessed, viewed, analyzed and shared. Registration not required.
Click here for more informationsPublished on 2012-07-09 07:22:20
OsiriX is an open-source image processing software dedicated to DICOM images (".dcm" / ".DCM" extension) produced by imaging equipment (MRI, CT, PET, PET-CT, SPECT-CT, Ultrasounds, ...). It is available in 32-bit and 64-bit format and is fully compliant with the DICOM standard for image comunication and image file formats. OsiriX is at the same time a DICOM PACS workstation for imaging and an image processing software for medical research (radiology and nuclear imaging), functional imaging, 3D imaging, confocal microscopy and molecular imaging. Registration not required.
Click here for more informationsPublished on 2012-07-09 06:50:45
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Distributed trough GitHub
Category: Imaging software
CISMM allows: Image tools listing
CISMM is one of several groups providing visualization and analysis tools freely usable by the biomedical microscopy community. There are a number of freely-available tools from other National Research Resources and elsewhere. We list some of them here for easy reference, along with brief descriptions Registration not required.
Click here for more informationsPublished on 2012-07-06 11:21:17
Neuroimaging Informatics Tools and Resources Clearinghouse (NITRC)facilitates access to a growing number of neuroimaging tools and resources. Continuing to identify existing software tools and resources valuable to this community, NITRC’s goal is to support its researchers dedicated to enhancing, adopting, distributing, and contributing to the evolution of neuroimaging analysis tools and resources. Registration not required.
Click here for more informationsPublished on 2012-07-06 09:51:53
MyBioSoftware provides a list with links of several software tools used in Bioinformatics. Registration not required.
Click here for more informationsPublished on 2012-07-05 11:04:57
Protégé is a free, open-source platform that provides a growing user community with a suite of tools to construct domain models and knowledge-based applications with ontologies. It is a tool that acts like the “word processor” of an ontology and uses a language like OWL as a convenient standard. At its core, Protégé implements a rich set of knowledge-modeling structures and actions that support the creation, visualization, and manipulation of ontologies in various representation formats. Registration required.
Click here for more informationsPublished on 2012-07-03 12:09:36
μManager is a open source microscopy software package for control of automated microscopes. It mainly targets camera-based imaging, although it is also used with scanning systems. It includes an easy-to-use interface that runs as an ImageJ plug-in and enables researchers to design and execute common microscopy functions as well as customized image-acquisition routines.The program can be used to collect multichannel data over space and time, such as tracking fluorescently tagged cell fusion events in live cells in a multiwell plate overnight. Registration not required.
Click here for more informationsPublished on 2012-07-02 10:30:21
GeneTests Web site is a publicly funded medical genetics information resource developed for physicians, other healthcare providers, and researchers, available at no cost to all interested persons. Registration not required.
Click here for more informationsPublished on 2012-07-02 09:54:52
Resources provided by EMAP are the EMA Anatomy Atlas of Mouse Development and the EMAGE Gene Expression Database. The EMA Anatomy Atlas of Mouse Development uses embryological mouse models to provide a digital atlas of mouse development. EMAGE is a database of in situ gene expression data in the mouse embryo and an accompanying suite of tools to search and analyse the data.
Click here for more informationsPublished on 2012-07-02 09:02:33
A collection of online public resources integrating extensive gene expression and neuroanatomical data, complete with a novel suite of search and viewing tools. The Allen Brain Atlas website contains a downloadable 3-D interactive Brain explorer for locations of gene expression. Users can delineate networks and pathways using this application by connecting regions that co-express a certain gene. Registration not required.
Click here for more informationsPublished on 2012-07-02 08:41:43
The Cell: An Image Library™ is a freely accessible, easy-to-search, public repository of reviewed and annotated images, videos, and animations of cells from a variety of organisms, showcasing cell architecture, intracellular functionalities, and both normal and abnormal processes. The purpose of this database is to advance research, education, and training, with the ultimate goal of improving human health. Registration not required.
Click here for more informationsPublished on 2012-07-01 12:20:31
Icy is a collaborative bioimage informatics platform that combines a community website for contributing and sharing tools and material, and software with a high-end visual programming framework for seamless development of sophisticated imaging workflows.It offers unique features for behavioral analysis, cell segmentation and cell tracking, Registration not required.
Click here for more informationsPublished on 2012-06-29 09:39:48
3D Visualization-Assisted Analysis (Vaa3D) is an open source cross-platform (Mac, Linux, and Windows) tool based on ITK libraries for visualizing large-scale (gigabytes, and 64-bit data) 3D image stacks and various surface data. It is also a container of powerful modules for 3D image analysis (cell segmentation, neuron tracing, brain registration, annotation, quantitative measurement and statistics, etc) and data management. Registration required.
Click here for more informationsPublished on 2012-06-29 09:31:09
BioImageXD,written in Python and C++, is a free open source software project for analyzing, processing and visualizing of multi dimensional microscopy images.BioImageXD is a multi-purpose post-processing tool for bioimaging. The software can be used for simple visualization of multi-channel temporal image stacks to complex 3D rendering of multiple channels at once. Registration not required.
Click here for more informationsPublished on 2012-06-29 09:26:46
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Category: Biomedical images search, Imaging software
Broad Bioimage Benchmark Collection allows: Image database, Broad
The Broad Bioimage Benchmark Collection (BBBC) is a collection of freely downloadable microscopy image sets intended as a resource for testing and validating automated image-analysis algorithms. In addition to the images themselves, each set includes a description of the biological application and some type of ground truth. Registration not required.
Click here for more informationsPublished on 2012-06-29 04:46:21
PhenoRipper is an open-source software tool designed for rapid exploration of high-content microscopy images that permits rapid and intuitive comparison of images obtained under different experimental conditions based on image phenotype similarity.PhenoRipper is designed to serve as an unsupervised exploratory tool for analysis of fluorescence microscopy images for both novices and experts. Registration not required.
Click here for more informationsPublished on 2012-06-29 04:36:42
SimuCell is an open-source framework for specifying and rendering realistic microscopy images containing diverse cell phenotypes, heterogeneous populations, microenvironmental dependencies and imaging artifacts. SimuCell can generate heterogeneous cellular populations composed of diverse cell types and allows users to specify interdependencies among population, biomarker and cell phenotypes (S. Rajaram et al., Nature Methods 9, 634, 2012). Registration not required.
Click here for more informationsPublished on 2012-06-29 04:17:28
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expression and localization of proteins in human tissues
Category: Protein informations
The human protein atlas shows expression and localization of proteins in a large variety of normal human tissues, cancer cells and cell lines with the aid of immunohistochemistry (IHC) images and immunofluorescence (IF) confocal microscopy images (Marx V., Nature 509:645, 2014). Registration not required.
Click here for more informationsPublished on 2012-06-24 03:21:41
MedlinePlus (NIH National Library of Medicine)is a free Web site that provides consumer health information for patients, families, and Health care providers. MedlinePlus brings together information from NIH, other federal agencies, and reputable health information providers. MedlinePlus covers a wide range of health conditions and wellness issues, and includes key resources to inform patients about their health. Registration not required.
Click here for more informationsPublished on 2012-06-13 11:20:02
Biomedical search tools
Online genomic tools
Online proteomics tools
Calculators
Biomedical lab tools
Scientific writing/reading
Biomedical communities
Biomedical funding and jobs
Medical topics
Biomedical softwares